[ITK Community] RawImageIO volume writing

[Emiliano Pastorelli]

Hi all,

I am trying to write to file a processed volume on which i'm working. Due
to the fact that another software of mine that performs another analysis on
the filtered dataset reads in nhdr+raw files (i write manually the nhdr,
and from there i only take size and endianness of the raw data).

the look of a nhdr header that i was loading in my software is this  :
#################################
NRRD0004
# Complete NRRD file format specification at:
# http://teem.sourceforge.net/nrrd/format.html
type: short
dimension: 3
space: left-posterior-superior
sizes: 795 788 576
space directions: (1,0,0) (0,1,0) (0,0,1)
kinds: domain domain domain
endian: little
encoding: raw
space origin: (-397,-393.5,-287.5)
data file: 4a.raw
#################################

what i am trying to do in the code to write a file in a similar format that
my software can understand and read. it's my first attempt at using the
RawImageIO, but doesn't matter what i change, the saved volume it's always
wrongly reconstructed.

A topdown view of the volume as it should look like
http://www.kyb3.org/images/MhdRaw.png
A topdown of how it looks like
http://www.kyb3.org/images/NhdrRaw.png

#################################
typedef RawImageIO<short, 3> rawWriter;
    rawWriter::Pointer newRawWriter = rawWriter::New();
    newRawWriter->SetFileTypeToBinary();

    newRawWriter->SetDimensions(0,150);
    newRawWriter->SetDimensions(1,150);
    newRawWriter->SetDimensions(2,150);

    vector<double> dirX(3);
    dirX[0]=1.0;dirX[1]=0.0;dirX[2]=0.0;
    vector<double> dirZ(3);
    dirZ[0]=0.0;dirZ[1]=0.0;dirZ[2]=1.0;
    vector<double> dirY(3);
    dirY[0]=0.0;dirY[1]=1.0;dirY[2]=0.0;

    newRawWriter->SetDirection(0,dirX);
    newRawWriter->SetDirection(1,dirZ);
    newRawWriter->SetDirection(2,dirY);
    newRawWriter->SetSpacing(0,1);
    newRawWriter->SetSpacing(1,1);
    newRawWriter->SetSpacing(2,1);

    newRawWriter->SetHeaderSize(0);
    newRawWriter->SetByteOrderToLittleEndian();
    newRawWriter->SetNumberOfComponents(1);

    /*
     * SAVE TO FILE
     */
    typedef itk::ImageFileWriter< OutputImageType > WriterType;
    WriterType::Pointer writer = WriterType::New();
    writer->SetInput( LabelToBinary->GetOutput() );
    writer->SetImageIO(newRawWriter);
    writer->SetFileName( "../VolumeAnalysis/Frangi.raw" );

    try{
        writer->Update();
    }
    catch( itk::ExceptionObject & error ){
        std::cerr << "Error: " << error << std::endl;
        return EXIT_FAILURE;
    }

    cout << "Volume Saved" << endl;
#################################

Best,
Emiliano
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